BioSimulator.jl

A stochastic simulation framework in Julia.

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Installation

using Pkg
Pkg.add("https://github.com/alanderos91/BioSimulator.jl.git")

Documentation

• STABLE — most recently tagged version of the documentation.
• LATEST — in-development version of the documentation.

Project Status

Citation

If you use BioSimulator.jl in an academic manuscript, please cite:

Landeros A, Stutz, T, Keys, KL, Alekseyenko, A, Sinsheimer, JS, Lange, K, & Sehl, ME (2018) BioSimulator. jl: Stochastic simulation in Julia. Computer Methods and Programs in Biomedicine 167, 23-35. (journal)(preprint)

@article{landeros2018biosimulator,
  title = {{{BioSimulator}}.Jl: Stochastic Simulation in {{Julia}}},
  shorttitle = {{{BioSimulator}}.Jl},
  author = {Landeros, Alfonso and Stutz, Timothy and Keys, Kevin L. and Alekseyenko, Alexander and Sinsheimer, Janet S. and Lange, Kenneth and Sehl, Mary E.},
  year = {2018},
  journal = {Computer Methods and Programs in Biomedicine},
  volume = {167},
  pages = {23--35},
  issn = {0169-2607},
  doi = {10.1016/j.cmpb.2018.09.009},
  langid = {english}
}

Stutz TC, Landeros A, Xu J, Sinsheimer JS, Sehl M, & Lange K (2021) Stochastic simulation algorithms for Interacting Particle Systems. PLOS ONE 2;16(3):e0247046. (journal)

@article{stutz2021stochastic,
  title = {Stochastic Simulation Algorithms for {{Interacting Particle Systems}}},
  author = {Stutz, Timothy C. and Landeros, Alfonso and Xu, Jason and Sinsheimer, Janet S. and Sehl, Mary and Lange, Kenneth},
  year = {2021},
  journal = {PLOS ONE},
  volume = {16},
  number = {3},
  pages = {e0247046},
  publisher = {{Public Library of Science}},
  issn = {1932-6203},
  doi = {10.1371/journal.pone.0247046},
  langid = {english}
}

Contributing